Molecular cloning and characterization of a thioester-containing protein from Zhikong scallop Chlamys farreri

Thioester-containing proteins are a family of proteins characterized by the unique intrachain beta-cysteinyl-gamma-glutamyl thioester, which play important roles in innate immune responses. The cDNA of Zhikong scallop Chlamys farreri thioester-containing protein (designated as CfTEP) was cloned by expressed sequence tag (EST) and rapid amplification of cDNA ends (RACE) approaches. The full-length cDNA of CfTEP was of 4616 bp, consisting of a 5 '-terminal untranslated region (UTR) of 30 bp and a 3 ' UTR of 140 bp with a polyadenylation signal sequence AATAAA and a poly(A) tail. The CfTEP cDNA encoded a polypeptide of 1481 amino acids with the theoretical isoelectric point of 5.98 and the predicted molecular weight of 161.4 kDa. The deduced amino acid sequence of CfTEP contained the canonical thioester motif GCGEQ, nine potential N-glycosylation sites and a C-terminal distinctive cysteine signature. It also contained a presumed catalytic histidine and proteolytic cleavage sites that were similar to C3 molecules. The high similarity of CfTEP with the thioester-containing proteins in other organisms, such as the TEPs from insects, the complement component C3, C4, C5 and the protease inhibitor alpha(2)-macroglobulin indicated that CfTEP should be a member of TEP family. The phylogenetic analysis revealed that CfTEP was closely related to TEPs from mollusc, nematodes and insects, and they formed a separate branch apart from the branches of complements factors and alpha(2)-macroglobulins. The spatial expression of CfTEP transcripts in healthy and bacterial challenged scallops was examined by semi-quantitative RT-PCR. The CfTEP transcripts were mainly detected in the tissues of hepatopancreas and gonad, and remarkably up-regulated by Microbial challenge, which suggested that CfTEP was a constitutive and inducible acute-phase protein involved in immune defense. These results provided new insights into the role of CfTEP in scallop immune responses, as well as the evolutionary origin of this important, widespread and functionally diversified family of proteins. (c) 2007 Published by Elsevier Ltd.

QTL Mapping for Frond Length and Width in Laminaria japonica Aresch (Laminarales, Phaeophyta) Using AFLP and SSR Markers

In Laminaria japonica Aresch breeding practice, two quantitative traits, frond length (FL) and frond width (FW), are the most important phenotypic selection index. In order to increase the breeding efficiency by integrating phenotypic selection and marker-assisted selection, the first set of QTL controlling the two traits were determined in F-2 family using amplified fragment length polymorphism (AFLP) and simple sequence repeat (SSR) markers. Two prominent L. japonicas inbred lines, one with "broad and thin blade" characteristics and another with "long and narrow blade" characteristics, were applied in the hybridization to yield the F-2 mapping population with 92 individuals. A total of 287 AFLP markers and 11 SSR markers were used to construct a L. japonica genetic map. The yielded map was consisted of 28 linkage groups (LG) named LG1 to LG28, spanning 1,811.1 cM with an average interval of 6.7 cM and covering the 82.8% of the estimated genome 2,186.7 cM. While three genome-wide significant QTL were detected on LG1 (two QTL) and LG4 for "FL," explaining in total 42.36% of the phenotypic variance, two QTL were identified on LG3 and LG5 for the trait "FW," accounting for the total of 36.39% of the phenotypic variance. The gene action of these QTL was additive and partially dominant. The yielded linkage map and the detected QTL can provide a tool for further genetic analysis of two traits and be potential for maker-assisted selection in L. japonica breeding.

Genetic mapping of laminaria japonica and l. longissima using amplified fragment length polymorphism markers in a "two-way pseudo-testcross" strategy

With a "two-way pseudo-testcross" mapping strategy, we applied the amplified fragment length polymorphism (AFLP) markers to construct two moderate density genetic linkage maps for Laminaria. The linkage maps were generated from the 60 progenies of the F, cross family (Laminaria longissima Aresch. x L. japonica Miyabe) with twenty pairs of primer combinations. Of the 333 polymorphic loci scored in 60 progenies, 173 segregated in a 1:1 ratio, corresponding to DNA polymorphisms heterozygous in a single parent, and the other 58 loci existing in both parents followed a 3:1 Mendelian segregation ratio. Among the loci with 1:1 segregating ratios, 79 loci were ordered in 14 linkage groups (648.6 cM) of the paternal map, and 72 loci were ordered in 14 linkage groups (601.9 cM) of the maternal map. The average density of loci was approximately 1 per 8 cM. To investigate the homologies between two parental maps, we used 58 loci segregated 3:1 for further analysis, and deduced one homologous linkage group. The linkage data developed in these maps will be useful for detecting loci-controlling commercially important traits for Laminaria.

双刺纺锤水蚤（Acartia bifilosa）基础生物学与生态学研究

20世纪90年代以来，为了确保日益增长的人口对蛋白质的需求，海洋鱼类养殖在全球范围内日趋发展。然而，许多养殖鱼类的品质如抗病力、口味等与野生种类相比大为降低。饵料对于鱼类品质的好坏起着至关重要的作用。在海洋的自然环境中，浮游动物，特别是数量庞大、种类繁多的桡足类是野生鱼类的天然活饵料。哪些桡足类适于作养殖饵料，如何获得、从何处获得桡足类，人工培养是否可行，能否通过加入桡足类来改善养殖鱼类的品质是长期以来业内人士一直关注的问题，需要大量的基础性探索研究工作。 开展有潜在开发价值种的生物学特性及室内培养的基础研究，进而开展大量生产技术的研究与应用，不仅是开发利用桡足类的一个重要途径，而且可以获得一些重要的生态学参数。 本论文自2003年10月－2004年9月之间，在胶州湾采集不同的桡足类种类，通过室内比较培养实验，选定双刺纺锤水蚤作为具有开发潜力的研究培养对象，对其展开一系列培养条件及生物学特性研究，在此基础上进行了小水体增殖培养，结合现场调查资料对与其生活策略相关的生态学问题进行了初步研究探索。结果如下： 筛选：2003年10月－2004年9月全年不同季节共采集11 种桡足类，在室内自然温度、自然海水（盐度30－32）下长时间培养，粗略筛选出能够经受实验室人工养殖水体生活的种类有：强额拟哲水蚤（Paracalanus. crassirostris）、汤氏长足水蚤（Calanopia thompson）、太平洋真宽水蚤（Eurytemora pacifica）、双刺纺锤水蚤（Acartia bifilosa）。对上述种类的成体和子代幼体分别测定其对不同盐度、温度的耐受能力。培养结果表明：18℃室温下，强额拟哲水蚤幼体在盐度20以上的环境中，存活时间不超过11天；汤氏长足水蚤雌体在培养温度低于20℃时，只能存活10天；25℃室温下，当盐度低于20时，汤氏长足水蚤雌体存活时间不超过9天，子代的存活时间不超过7天；太平洋真宽水蚤不适宜在温度较高的夏秋季培养，幼体在不同盐度的实验条件下存活时间不超过5天，不适宜长期培养；双刺纺锤水蚤在全年8－24℃的室内培养温度范围内保持了24－85％的存活率，雌体和子代在盐度10－35的范围内都能存活，最终结果表明双刺纺锤水蚤是其中最适宜进行人工培养的种类。 繁殖：对双刺纺锤水蚤雌体的培养条件和繁殖生物学的研究结果表明：在本实验所使用的6种微藻饵料：微绿球藻（Nannochloropsis oculata）、小球藻（Chlorella.sp）、等鞭金藻（Isochrysis galbana）、三角褐指藻(Phaeodactylum tricornutum)、亚心型扁藻(Platymonas subordiformis)、中肋骨条藻(Skeletonema costatum)中，亚心型扁藻和中肋骨条藻适宜成体培养，亚心型扁藻对雌体存活有利，排粪率也要比中肋骨条藻低得多，亚心型扁藻在高温条件下的饵料利用效率要高于中肋骨条藻，中肋骨条藻对产卵有利，二者混合优势互补；预饥饿处理的双刺纺锤水蚤恢复到最高产卵率需要较长的时间，并且一直保持较低的产卵率；该种繁殖的最适温度范围15－20℃；在10－25℃温度范围内的平均产卵率差异并不显著。 生长及发育：对双刺纺锤水蚤幼体培养条件及发育生物学研究结果表明：在本实验所使用的6种微藻饵料中，微绿球藻是比较理想的开口饵料；粒径小（ 4 m）的微藻——微绿球藻和小球藻不能保证双刺纺锤水蚤后期无节幼体发育至桡足阶段，22℃以下采用微绿球藻 + 亚心型扁藻 + 中肋骨条藻的食物搭配，22℃以上需加入粒径在4m左右的等鞭金藻。 世代时间：通过一系列的温度梯度实验，证明在相同饵料的情况下，温度对双刺纺锤水蚤的发育具有显著的影响，在15－25℃的范围内，随着温度的升高，生长速度加快、世代周期缩短；在温度条件为15、18、20、22、25℃下的世代时间分别为25.5, 18.5, 13, 11.5, 9.5天。 群体培养：研究了适宜的微藻饵料种类搭配比例以及总饵料浓度对种群日均增值率的影响。结果表明：20℃下培养宜采用亚心型扁藻：中肋骨条藻：微绿球藻按含碳量2:1:1的比例组成混合饵料，达到最高增殖率的混合饵料浓度范围在1.0－4.0 μg C ml-1之间；25℃下培养宜采用亚心型扁藻：中肋骨条藻：微绿球藻：等鞭金藻按含碳量2:1:1:2的比例组成混合饵料，日均增殖率在混合饵料总浓度为1.0 μg C ml-1 时最高，低于和高于此浓度都会降低日增值率。 度夏机制：针对野外大面调查发现双刺纺锤水蚤在高温季节的胶州湾内仍然存在的事实（传统观点认为该种在夏季从水体中消失，通过休眠卵度夏），本论文从基础生态学研究出发，根据胶州湾夏季的温度和叶绿素浓度资料，设计实验研究了高温和饵料浓度对成体繁殖和幼体生长发育的影响。实验发现，饵料浓度对高温下雌体的繁殖有着明显的影响，15g Chla l-1浓度下的雌体在28℃都可以保持产卵状态，而且卵的孵化率也在50％以上；各处理中的卵都很快孵化，并保持了60％以上的孵化率；高浓度组15 g Chla l-1和10 g Chla l-1，无节幼体都能发育至成体，低浓度5 g Chla l-1处理组中，28℃下，不能发育至桡足阶段，而25℃下也只能发育至C4期。在本实验中没有发现双刺纺锤水蚤产生休眠卵。在胶州湾自然环境中发现该种全年存在。胶州湾中的双刺纺锤水蚤在夏季能够在不产生休眠卵的情况下安全度夏。

Effects of different diets on the reproduction and naupliar development of the copepod Acartia bifilosa

The influence of diatoms on the reproduction and naupliar development of Acartia bifilosa was investigated under laboratory conditions, comparing initial in situ values and laboratory-food treatments. Egg production by A. bifilosa was significantly reduced by one diatom diet (Phaeodactylum tricornutum: Pt) and by two non-diatom diets (Platymonas subordiformis: Ps and Nannochloropsis oculata: No). It was less affected by the other diatom diet (Skeletonema costatum: Sc) or by two mixed-food treatments (D-mix and DG-mix), composed of two diatoms (Pt, Sc) and four species (Pt, Sc, Ps and No), respectively. The negative effect of Pt was eliminated when adult copepods were offered mixed-food diets. There were no significant differences between the hatching success values observed in filtered seawater and in algal exudates, indicating that diatoms did not produce active dissolved toxic substances under the different food concentrations tested. The mortality rate of nauplii was higher with Pt than the other diets, suggesting that this diatom species had a negative effect on egg production, hatching success and naupliar survival simultaneously. Compared to other diets, No and Pt were not beneficial food sources for reproduction and for female and larval survival. (c) 2007 Elsevier B.V. All rights reserved.

Identification and mapping of amplified fragment length polymorphism markers linked to shell color in bay scallop, Argopecten irradians irradians (Lamarck, 1819)

Amplified fragment length polymorphisms (AFLP) were used to study the inheritance of shell color in Argopecten irradians. Two scallops, one with orange and the other with white shells, were used as parents to produce four F-1 families by selfing and outcrossing. Eighty-eight progeny, 37 orange and 51 white, were randomly selected from one of the families for segregation and mapping analysis with AFLP and microsatellite markers. Twenty-five AFLP primer pairs were screened, yielding 1138 fragments, among which 148 (13.0%) were polymorphic in two parents and segregated in progeny. Six AFLP markers showed significant (P < 0.05) association with shell color. All six loci were mapped to one linkage group. One of the markers, F1f335, is completely linked to the gene for orange shell, which we designated as Orange1, without any recombination in the progeny we sampled. The marker was amplified in the orange parent and all orange progeny, but absent in the white parent and all the white progeny. The close linkage between F1f335 and Orange1 was validated using bulk segregation analysis in two natural populations, and all our data indicate that F1f335 is specific for the shell color gene, Orange1. The genomic mapping of a shell color gene in bay scallop improves our understanding of shell color inheritance and may contribute to the breeding of molluscs with desired shell colors.

Its length polymorphism in oysters and its use in species identification

In an effort to develop genetic markers for oyster identification, we studied length polymorphism in internal transcribed spacers (ITS) between major ribosomal RNA genes in 12 common species of Ostreidae: Crassostrea virginica, C. rhizophorae, C. gigas, C. angulata, C. sikamea, C. ariakensis, C. hongkongensis, Saccostrea echinata, S. glomerata, Ostrea angasi, O. edulis, and O. conchaphila. We designed two pairs of primers and optimized PCR conditions for simultaneous amplification of ITS 1 and ITS2 in a single PCR. Amplification was successful in all 12 species, and PCR products were visualized on high-resolution agarose gels. ITS2 was longer than ITS 1 in all Crassostrea and Saccostrea species, whereas they were about the same size in the three Ostrea species. No intraspecific variation in ITS length was detected. Among species, the length of ITS I and ITS2 was polymorphic and provided unique identification of 8 species or species pairs: C. ariakensis, C. hongkongensis, C. sikamea, O. conchaphila, C. virginica/C. rhizophorae, C. gigas/C. angulata, S. echinata/S. glonzerata, and O. angasi/O. edulis. The ITS assay provides simple, rapid and effective identification of C. ariakensis and several other oyster species. Because the primer sequences are conserved, the ITS assay may be useful in the identification of other bivalve species.